This page contains links to different lectures (slides) and practical exercises (labs) that are part of this workshop. The links below are similar to that under Schedule but organised here by topic.


Input code blocks are displayed like shown below. The code language is displayed above the block. Shell scripts (SH) are to be executed in the linux terminal. R scripts are to be run in R either through the terminal, RGui or RStudio.

sh 
command

Note   Tip   Discuss   Task


Slides

  1. Introduction to Bioinformatics
  2. Software Installation
  3. Next-Generation Sequencing
  4. Data Sources
  5. Data Formats
  6. Data Visualization
  7. Quality Control
  8. Sequence Alignment
  9. Read Mapping
  10. SAM Format
  11. RNA-seq
  12. Metagenomics

Labs

  1. Introduction to Conda
  2. SRA Toolkit and EDirect
  3. FASTA/Q Processing
  4. Integrative Genomics Viewer
  5. Quality Control
  6. Read mapping
  7. Samtools
  8. Analysis of RNA-seq data